Experiment description: Juicer version 1.6; BWA 0.7.18-r1243-dirty; 10 threads; openjdk version "17.0.8-internal" 2023-07-18; /data/amivanov/Tools/juicer1.6_compact-main/scripts/juicer.sh -g T2T -d /data/amivanov/Projects/Embryos/2025-01-31_BGI/A/K11 -s DpnII -y /data/amivanov/Databases/T2T-CHM13v2.0/juicer.rs/T2T-CHM13v2.0_DpnII.txt -p /data/amivanov/Databases/T2T-CHM13v2.0/hgT2T.chromsizes -z /data/amivanov/Databases/T2T-CHM13v2.0/hgT2T.fa -D /data/amivanov/Tools/juicer1.6_compact-main -t 10                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
Sequenced Read Pairs:  9,367,596
 Normal Paired: 5,657,903 (60.40%)
 Chimeric Paired: 2,778,121 (29.66%)
 Chimeric Ambiguous: 707,737 (7.56%)
 Unmapped: 223,835 (2.39%)
 Ligation Motif Present: 2,325,573 (24.83%)
Alignable (Normal+Chimeric Paired): 8,436,024 (90.06%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2025-03-05T11:25:28,764]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 2,100,392 (22.42%)
PCR Duplicates: 0 (0.00%)
Optical Duplicates: 6,335,632 (67.63%)
Library Complexity Estimate: 0
Intra-fragment Reads: 407,964 (4.36% / 19.42%)
Below MAPQ Threshold: 480,283 (5.13% / 22.87%)
Hi-C Contacts: 1,620,109 (17.29% / 77.13%)
 Ligation Motif Present: 322,618  (3.44% / 15.36%)
 3' Bias (Long Range): 56% - 44%
 Pair Type intra chrom %(L-I-O-R): 9% - 73% - 9% - 9%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 52%
 Cis/all (FF and RR orient): 62.2%
Inter-chromosomal: 291,491  (3.11% / 13.88%)
Intra-chromosomal: 1,328,618  (14.18% / 63.26%)
Short Range (<20,000bp): 915,406  (9.77% / 43.58%)
Long Range (>20,000bp): 413,212  (4.41% / 19.67%)